{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Junya Mizoi"],"study_type":["transcription profiling by array"],"organism":["Solanum lycopersicum"],"species":["Solanum lycopersicum"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16411"],"description":["To investigate gene expression changes in tomato under low-phosphate conditions, plants were grown hydroponically using either a standard nutrient solution containing normal phosphate levels or a modified solution in which phosphate concentration was reduced to 1% of the control. Leaves were harvested two weeks after transplantation, and total RNA was extracted for microarray-based comparison of gene expression between the two phosphate regimes."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - Leaf blades were cut from the plants, and the samples were frozen in liquid nitrogen.","Nucleic Acid Extraction - Total RNA was isolated from the frozen samples using RNA iso plus (TaKaRa). Three seedlings were pooled to prepare an RNA sample.","Growth Protocol - Tomato seedlings were transplanted at the age of 4 w old and grown for 2 w hydroponically with different concentrations of nutrients. The phosphate concentration in the control solution (P100%) and low phosphate solution (P1%) were 100% and 1%, respectively.","Hybridization - Two sets of samples (biological repeats) were analyzed using a Cy3 and Cy5 dye swap (technical repeats).","Labeling - Total RNA (250 ng) was labeled with a Low RNA Input Linear Amplification/Labeling Kit (Agilent Technologies) according to the manufacturer's instructions.","Scaning - Microarray slides were scanned (scanner model G2505C with scan control software, version A.8.4; Agilent Technologies) and the data were analyzed using Feature Extraction software, version 11.5.1.1 (Agilent technologies) using the default settings."],"figure_sub":["MIAME Score","Raw Data","Organization","Assays and Data","Processed Data","MAGE-TAB Files","Array Designs"],"pubmed_authors":["Junya Mizoi"],"data_protocol":["Data Transformation - Data was processed using the Subio Platform software. Normalization was done by selecting LOWESS Normalization. One representative probe was selected for each locus."],"additional_accession":[]},"is_claimable":false,"name":"Microarray analysis of tomato leaves grown hydroponically under low-phosphate condition","description":"To investigate gene expression changes in tomato under low-phosphate conditions, plants were grown hydroponically using either a standard nutrient solution containing normal phosphate levels or a modified solution in which phosphate concentration was reduced to 1% of the control. Leaves were harvested two weeks after transplantation, and total RNA was extracted for microarray-based comparison of gene expression between the two phosphate regimes.","dates":{"release":"2026-01-06T00:00:00Z","modification":"2026-05-27T16:14:22.784Z","creation":"2025-12-18T11:30:05.064Z"},"accession":"E-MTAB-16411","cross_references":{"Biostudies":["E-MTAB-16410"],"EFO":["EFO_0002768","EFO_0002944","EFO_0003814","EFO_0003813","EFO_0003789","EFO_0005518","EFO_0003816","EFO_0003815"]}}